2AVU | pdb_00002avu

Structure of the Escherichia coli FlhDC complex, a prokaryotic heteromeric regulator of transcription


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 
    0.255 (Depositor), 0.249 (DCC) 
  • R-Value Work: 
    0.217 (Depositor), 0.213 (DCC) 
  • R-Value Observed: 
    0.217 (Depositor) 

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Structure of the Escherichia coli FlhDC Complex, a Prokaryotic Heteromeric Regulator of Transcription.

Wang, S.Fleming, R.T.Westbrook, E.M.Matsumura, P.McKay, D.B.

(2006) J Mol Biology 355: 798-808

  • DOI: https://doi.org/10.1016/j.jmb.2005.11.020
  • Primary Citation Related Structures: 
    2AVU

  • PubMed Abstract: 

    The hetero-oligomeric complex of the FlhD and FlhC proteins (FlhDC) regulates transcription from several flagellar and non-flagellar operons in bacteria. The crystallographic structure of the Escherichia coli FlhDC complex has been solved to 3.0 A resolution, revealing a hexameric FlhD4FlhC2 assembly. In the complex, each FlhC protomer binds an FlhD2 dimer; the conformation of the dimer in the complex differs significantly from its conformation in the absence of FlhC. FlhC has a novel tertiary fold that includes a heretofore unrecognized zinc-binding site in which the ion is ligated by four cysteine residues. Gel shift experiments show that binding of the FlhDC complex to a cognate promoter bends the DNA by approximately 111 degrees . The structure of the FlhDC complex is compatible with models in which a fragment of operator DNA, at least 48 base-pairs in length, wraps around the complex and bends significantly when binding.


  • Organizational Affiliation
    • Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA.

Macromolecule Content 

  • Total Structure Weight: 96.64 kDa 
  • Atom Count: 5,316 
  • Modeled Residue Count: 672 
  • Deposited Residue Count: 848 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Transcriptional activator flhD
A, B, C, D
116Escherichia coliMutation(s): 0 
Gene Names: flhDflbB
UniProt
Find proteins for P0A8S9 (Escherichia coli (strain K12))
Explore P0A8S9 
Go to UniProtKB:  P0A8S9
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A8S9
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Flagellar transcriptional activator flhC
E, F
192Escherichia coliMutation(s): 0 
Gene Names: flhCflaI
UniProt
Find proteins for P0ABY7 (Escherichia coli (strain K12))
Explore P0ABY7 
Go to UniProtKB:  P0ABY7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0ABY7
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free:  0.255 (Depositor), 0.249 (DCC) 
  • R-Value Work:  0.217 (Depositor), 0.213 (DCC) 
  • R-Value Observed: 0.217 (Depositor) 
Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 151.137α = 90
b = 151.137β = 90
c = 114.16γ = 120
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data reduction
SCALEPACKdata scaling
SOLVEphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-12-13
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-02-14
    Changes: Data collection, Database references, Derived calculations